SMTL ID : 5es7.1

Crystal structure of the F-A domains of the LgrA initiation module soaked with FON, AMPcPP, and valine.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

monomer

Ligands

1 x FON: N-{[4-({[(6R)-2-amino-5-formyl-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)phenyl]carbonyl}-L-glutamic acid(Non-covalent)

FON.1: 18 residues within 4Å: Chain A: S.50, Y.53, G.54, Y.55, I.56, L.57, N.71, H.73, R.83, H.101, I.103, D.104, E.105, H.106, V.107, D.108, F.166, K.167 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.56, A:R.83 Hydrogen bonds: A:Y.53, A:L.57, A:E.105, A:D.108, A:K.167 Water bridges: A:H.73

1 x VAL: VALINE(Non-covalent)

VAL.2: 12 residues within 4Å: Chain A: F.395, D.396, G.397, Y.439, G.462, G.463, G.482, P.483, T.484, I.488, M.489 Ligands: APC.3 3 PLIP interactions: 1 Ligand-Ligand interactions, 2 interactions with chain A Hydrogen bonds: V.2, A:D.396 Hydrophobic interactions: A:I.488

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.3: 17 residues within 4Å: Chain A: G.462, G.463, D.464, V.465, L.466, N.479, G.480, Y.481, G.482, P.483, T.484, I.504, T.566, D.568, F.580, R.583 Ligands: VAL.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.463, A:N.479, A:N.479, A:D.568 pi-Stacking: A:Y.481

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reimer, J.M. et al., Synthetic cycle of the initiation module of a formylating nonribosomal peptide synthetase. Nature (2016)

Release Date

2016-01-20

Peptides

Linear gramicidin synthetase subunit A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Linear gramicidin synthetase subunit A

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